Hi Anastasia If I have T1 data available in my FS subject directory and I have
Use brain mask extracted from T1 image instead of low-b diffusion image? # Has no effect if there is no T1 data # Default: 1 (yes) # set usemaskanat = 1 then will the B0 brain mask we spoke of below be used? Deryk On Fri, Jun 10, 2011 at 10:46 AM, Anastasia Yendiki < ayend...@nmr.mgh.harvard.edu> wrote: > > Hi Deryk - This variable is only used to average lowb images to create a > mask, so in your case you can set it to 2 and it'll just use the first 2 > volumes from your nii file. Sorry for the confusion! > > a.y > > > On Fri, 10 Jun 2011, Deryk S. Beal, Ph.D. wrote: > > Dear Tracula Users >> >> Does Tracula assume that the number of B0 scans, specified in Step 7.3 of >> the config file tutorial (below), are the first X number of volumes in the >> 4Dnii.gz file or will the Tracula routines know from the bvals file where >> the B0 scans are ordered in the file? For example, I have two runs of 16 >> directions + 2 B0s each for each of my subjects. I have merged the two >> runs >> together and the resulting file has the volumes ordered such that the >> bvals >> are entered into Tracula as follows: >> >> 0 >> 0 >> 1000 >> 1000 >> 1000 >> etc >> 0 >> 0 >> 1000 >> 1000 >> 1000 >> etc >> >> My question pertains to the following part of the Tracula config file: >> >> Step7.3: Specifying Number Of low-b Images The last step to set up if not >> using original DICOMs would be to specify the number of low-b images with >> the following variable: >> >> set nb0 = *No. of low-b images* >> Thank you in advance for your help. >> Cheers, >> Deryk >> >> Deryk S. Beal, Ph.D., CCC-SLP, S-LP(C), Reg. CASLPO >> Speech-Language Pathologist >> C.I.H.R. Post Doctoral Research Fellow >> Department of Cognitive and Neural Systems Speech Laboratory >> Boston University, 677 Beacon Street, Boston, MA 02215 >> dsb...@bu.edu >> http://blogs.bu.edu/dsbeal/about/ >> ************************************************************************* >> This email may contain confidential and/or privileged information for the >> sole use of the intended recipient. Any review or distribution by others >> is >> strictly prohibited. If you have received this email in error, please >> contact the sender and delete all copies. Opinions, conclusions or other >> information expressed or contained in this email are not given or endorsed >> by the sender unless otherwise affirmed independently by the sender. >> >> >> > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. >
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